RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

General features for molecule PDB_00751 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00751 Molecule name [?]: RNA APTAMER COMPLEXED WITH HIV-1 REV PEPTIDE, NMR, 7 STRUCTURES Source [?]: RCSB Protein Data Bank Source ID [?]: 1ULL Reference [?]: X.YE,A.GORIN,A.D.ELLINGTON,D.J.PATEL. DEEP PENETRATION OF AN ALPHA-HELIX INTO A WIDENED RNA MAJOR GROOVE IN THE HIV-1 REV PEPTIDE-RNA APTAMER COMPLEX.. NAT.STRUCT.BIOL. V. 3 1026 1996 ASTM NSBIEW US ISSN 1072-8368 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HUMAN IMMUNODEFICIENCY VIRUS 1 Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 35 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 9 Number of paired bases [?]: 26

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 13 Maximum length of a stem [?]: 5 Average length of a stem [?]: 4.33 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -4.2 Average estimated free energy [?]: -5.5 Minimum estimated free energy [?]: -7.8

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 2 Average number of free bases in hairpin loops [?]: 2 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 2 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.75 Minimum number of free bases in bulge loop [?]: 0

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 2 Total number of AA non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 1

Pseudoknot features

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